Variant report

Variant	rs57487429
Chromosome Location	chr15:59528460-59528461
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs3794488	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774323	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58579379	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59773793	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62002697	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494079	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494080	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494084	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494086	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494087	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6494089	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7172489	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7172761	0.94[ASN][1000 genomes]
rs7174147	0.94[ASN][1000 genomes]
rs7175876	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7179352	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7181249	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8027055	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027766	0.91[EUR][1000 genomes]
rs8038705	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8040147	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1035868	chr15:59402426-59530594	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv833027	chr15:59474806-59608544	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv904272	chr15:59500577-59549018	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv904273	chr15:59518488-59567137	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59468200-59528600	Weak transcription	Stomach Mucosa	stomach
2	chr15:59511400-59549200	Weak transcription	Colonic Mucosa	Colon
3	chr15:59515800-59566600	Weak transcription	Pancreas	Pancrea
4	chr15:59516600-59529400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:59517000-59530200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr15:59517000-59536600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:59517200-59528600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr15:59517200-59528800	Weak transcription	Primary B cells from cord blood	blood
9	chr15:59517200-59529000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr15:59517400-59529000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr15:59517400-59530000	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr15:59517600-59528600	Weak transcription	HepG2	liver
13	chr15:59517600-59529000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr15:59517600-59546400	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr15:59517800-59528600	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr15:59517800-59564200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:59518000-59528800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr15:59520000-59528800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr15:59521600-59534400	Weak transcription	Placenta	Placenta
20	chr15:59521600-59566400	Weak transcription	Psoas Muscle	Psoas
21	chr15:59524000-59541800	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr15:59524000-59542200	Weak transcription	Gastric	stomach
23	chr15:59524000-59546200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:59524400-59528800	Weak transcription	Fetal Intestine Large	intestine
25	chr15:59524600-59569200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:59524600-59574600	Weak transcription	Lung	lung
27	chr15:59524800-59529000	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr15:59524800-59532800	Weak transcription	Fetal Intestine Small	intestine
29	chr15:59524800-59542200	Weak transcription	Esophagus	oesophagus
30	chr15:59525000-59531800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr15:59525000-59541800	Weak transcription	Fetal Muscle Leg	muscle
32	chr15:59525000-59546400	Weak transcription	Stomach Smooth Muscle	stomach
33	chr15:59525200-59528600	Weak transcription	Primary B cells from peripheral blood	blood
34	chr15:59525200-59528600	Weak transcription	Brain Substantia Nigra	brain
35	chr15:59525200-59528800	Weak transcription	Adipose Nuclei	Adipose
36	chr15:59525200-59528800	Weak transcription	Duodenum Mucosa	Duodenum
37	chr15:59525200-59529000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr15:59525200-59530000	Weak transcription	Left Ventricle	heart
39	chr15:59525200-59530200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr15:59525200-59530200	Weak transcription	NHLF	lung
41	chr15:59525200-59532000	Weak transcription	Brain Hippocampus Middle	brain
42	chr15:59525200-59532400	Weak transcription	Ovary	ovary
43	chr15:59525200-59532800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr15:59525200-59533000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr15:59525200-59533000	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr15:59525200-59533200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr15:59525200-59540200	Weak transcription	Right Ventricle	heart
48	chr15:59525200-59543000	Weak transcription	Right Atrium	heart
49	chr15:59525200-59547800	Weak transcription	Colon Smooth Muscle	Colon
50	chr15:59525200-59554000	Weak transcription	Rectal Smooth Muscle	rectum

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